In Situ Detection of Human Papillomavirus DNA After PCR-Amplification View Full Text


Ontology type: schema:Chapter     


Chapter Info

DATE

2010-10-05

AUTHORS

Gerard J Nuovo

ABSTRACT

Human papillomavirus (HPV) is an essential cofactor for cancer at many sites, including the genital tract, oral cavity, conjunctiva, and periungual region. The in situ detection of HPV allows us to determine the cellular targets of the virus. In situ-based coexpression analyses of HPV with putative target proteins provide tremendous insight into the molecular evolution of these viral-associated cancers. HPV DNA is present in high copy number in the precancerous lesions and is, thus, readily detected by in situ hybridization. However, viral integration, typical during oncogenesis, is associated with reduced copy number of the virus, necessitating in situ polymerase chain reaction amplification for accurate in situ detection of HPV. This chapter provides the protocols that can be used to detect HPV DNA in situ as well as to correlate viral DNA with coexpression of relevant protein targets. More... »

PAGES

35-46

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/978-1-60761-947-5_4

DOI

http://dx.doi.org/10.1007/978-1-60761-947-5_4

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1012982997

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/20938831


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Genetics", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA, Viral", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Humans", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Immunohistochemistry", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "In Situ Hybridization", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Papillomaviridae", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Polymerase Chain Reaction", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "The Ohio State University Wexner Medical Center", 
          "id": "https://www.grid.ac/institutes/grid.412332.5", 
          "name": [
            "Comprehensive Cancer Center, Ohio State University Medical Center, Columbus, OH, USA."
          ], 
          "type": "Organization"
        }, 
        "familyName": "Nuovo", 
        "givenName": "Gerard J", 
        "id": "sg:person.01024605131.74", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01024605131.74"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1038/nprot.2008.215", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1026866162", 
          "https://doi.org/10.1038/nprot.2008.215"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-199203000-00007", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027740561"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-199203000-00007", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027740561"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-200110000-00013", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1029179647"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-200110000-00013", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1029179647"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/ajcp/95.2.117", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031378440"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-199009000-00004", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036252091"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1097/00000478-199009000-00004", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036252091"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.ymeth.2007.10.008", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038031341"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.ymeth.2007.10.008", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038031341"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.molcel.2010.02.018", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1051309201"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1074949609", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1077221474", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1077272717", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1079422671", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1177/172460080902400401", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100433633"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1177/172460080902400401", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100433633"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2010-10-05", 
    "datePublishedReg": "2010-10-05", 
    "description": "Human papillomavirus (HPV) is an essential cofactor for cancer at many sites, including the genital tract, oral cavity, conjunctiva, and periungual region. The in situ detection of HPV allows us to determine the cellular targets of the virus. In situ-based coexpression analyses of HPV with putative target proteins provide tremendous insight into the molecular evolution of these viral-associated cancers. HPV DNA is present in high copy number in the precancerous lesions and is, thus, readily detected by in situ hybridization. However, viral integration, typical during oncogenesis, is associated with reduced copy number of the virus, necessitating in situ polymerase chain reaction amplification for accurate in situ detection of HPV. This chapter provides the protocols that can be used to detect HPV DNA in situ as well as to correlate viral DNA with coexpression of relevant protein targets.", 
    "editor": [
      {
        "familyName": "Theophilus", 
        "givenName": "Bimal D.M.", 
        "type": "Person"
      }, 
      {
        "familyName": "Rapley", 
        "givenName": "Ralph", 
        "type": "Person"
      }
    ], 
    "genre": "chapter", 
    "id": "sg:pub.10.1007/978-1-60761-947-5_4", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isPartOf": {
      "isbn": [
        "978-1-60761-946-8", 
        "978-1-60761-947-5"
      ], 
      "name": "PCR Mutation Detection Protocols", 
      "type": "Book"
    }, 
    "name": "In Situ Detection of Human Papillomavirus DNA After PCR-Amplification", 
    "pagination": "35-46", 
    "productId": [
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "20938831"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1012982997"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/978-1-60761-947-5_4"
        ]
      }, 
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "3dd9f6b65985acd37181ac09771f99d6e9ea900c2ae0ec110e55a2267b164ed8"
        ]
      }
    ], 
    "publisher": {
      "location": "Totowa, NJ", 
      "name": "Humana Press", 
      "type": "Organisation"
    }, 
    "sameAs": [
      "https://doi.org/10.1007/978-1-60761-947-5_4", 
      "https://app.dimensions.ai/details/publication/pub.1012982997"
    ], 
    "sdDataset": "chapters", 
    "sdDatePublished": "2019-04-16T08:26", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000363_0000000363/records_70056_00000000.jsonl", 
    "type": "Chapter", 
    "url": "https://link.springer.com/10.1007%2F978-1-60761-947-5_4"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1007/978-1-60761-947-5_4'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1007/978-1-60761-947-5_4'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/978-1-60761-947-5_4'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/978-1-60761-947-5_4'


 

This table displays all metadata directly associated to this object as RDF triples.

131 TRIPLES      23 PREDICATES      45 URIs      26 LITERALS      15 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/978-1-60761-947-5_4 schema:about N03874bd66a634f6ab0d2829334fb1d44
2 N7df83edee8ae411091d58ed3046d9ae0
3 N872d780e4c1044bdad5a496addf84d4d
4 N8e1d3998fd32455b95c499de8d4bc625
5 N9645e0e878414346bcd1ccae4aeb22e1
6 Nf389a38424bb485d9560cc8ddbfb2ca6
7 anzsrc-for:06
8 anzsrc-for:0604
9 schema:author Ncbb5c8ccac0943b8afb2b302117c09cb
10 schema:citation sg:pub.10.1038/nprot.2008.215
11 https://app.dimensions.ai/details/publication/pub.1074949609
12 https://app.dimensions.ai/details/publication/pub.1077221474
13 https://app.dimensions.ai/details/publication/pub.1077272717
14 https://app.dimensions.ai/details/publication/pub.1079422671
15 https://doi.org/10.1016/j.molcel.2010.02.018
16 https://doi.org/10.1016/j.ymeth.2007.10.008
17 https://doi.org/10.1093/ajcp/95.2.117
18 https://doi.org/10.1097/00000478-199009000-00004
19 https://doi.org/10.1097/00000478-199203000-00007
20 https://doi.org/10.1097/00000478-200110000-00013
21 https://doi.org/10.1177/172460080902400401
22 schema:datePublished 2010-10-05
23 schema:datePublishedReg 2010-10-05
24 schema:description Human papillomavirus (HPV) is an essential cofactor for cancer at many sites, including the genital tract, oral cavity, conjunctiva, and periungual region. The in situ detection of HPV allows us to determine the cellular targets of the virus. In situ-based coexpression analyses of HPV with putative target proteins provide tremendous insight into the molecular evolution of these viral-associated cancers. HPV DNA is present in high copy number in the precancerous lesions and is, thus, readily detected by in situ hybridization. However, viral integration, typical during oncogenesis, is associated with reduced copy number of the virus, necessitating in situ polymerase chain reaction amplification for accurate in situ detection of HPV. This chapter provides the protocols that can be used to detect HPV DNA in situ as well as to correlate viral DNA with coexpression of relevant protein targets.
25 schema:editor N9e124754c47141bcbe95d9327b7afd00
26 schema:genre chapter
27 schema:inLanguage en
28 schema:isAccessibleForFree false
29 schema:isPartOf N4804465752824924846521b66ba95565
30 schema:name In Situ Detection of Human Papillomavirus DNA After PCR-Amplification
31 schema:pagination 35-46
32 schema:productId N2a7956c59ac34ab5998623b685648503
33 N982131a963fe4072af9b34f07f36b888
34 N985ebc30ad624494a4176c6e796cbf2f
35 Nfe82c00688dd4cef873cc8f12581fa57
36 schema:publisher N7b2b246b5a54433d8aa18297a08245bf
37 schema:sameAs https://app.dimensions.ai/details/publication/pub.1012982997
38 https://doi.org/10.1007/978-1-60761-947-5_4
39 schema:sdDatePublished 2019-04-16T08:26
40 schema:sdLicense https://scigraph.springernature.com/explorer/license/
41 schema:sdPublisher Nac3bda1b6e304661805a99dba5d3f762
42 schema:url https://link.springer.com/10.1007%2F978-1-60761-947-5_4
43 sgo:license sg:explorer/license/
44 sgo:sdDataset chapters
45 rdf:type schema:Chapter
46 N03874bd66a634f6ab0d2829334fb1d44 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
47 schema:name Humans
48 rdf:type schema:DefinedTerm
49 N2a7956c59ac34ab5998623b685648503 schema:name readcube_id
50 schema:value 3dd9f6b65985acd37181ac09771f99d6e9ea900c2ae0ec110e55a2267b164ed8
51 rdf:type schema:PropertyValue
52 N4804465752824924846521b66ba95565 schema:isbn 978-1-60761-946-8
53 978-1-60761-947-5
54 schema:name PCR Mutation Detection Protocols
55 rdf:type schema:Book
56 N484651f4399c487ea35f8844d25c24b2 schema:familyName Theophilus
57 schema:givenName Bimal D.M.
58 rdf:type schema:Person
59 N72982b9994ae4458814f94ab668b0ea4 schema:familyName Rapley
60 schema:givenName Ralph
61 rdf:type schema:Person
62 N7b2b246b5a54433d8aa18297a08245bf schema:location Totowa, NJ
63 schema:name Humana Press
64 rdf:type schema:Organisation
65 N7df83edee8ae411091d58ed3046d9ae0 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
66 schema:name DNA, Viral
67 rdf:type schema:DefinedTerm
68 N843708996c174eec929e667e92ad3a5c rdf:first N72982b9994ae4458814f94ab668b0ea4
69 rdf:rest rdf:nil
70 N872d780e4c1044bdad5a496addf84d4d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
71 schema:name Immunohistochemistry
72 rdf:type schema:DefinedTerm
73 N8e1d3998fd32455b95c499de8d4bc625 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
74 schema:name In Situ Hybridization
75 rdf:type schema:DefinedTerm
76 N9645e0e878414346bcd1ccae4aeb22e1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
77 schema:name Polymerase Chain Reaction
78 rdf:type schema:DefinedTerm
79 N982131a963fe4072af9b34f07f36b888 schema:name dimensions_id
80 schema:value pub.1012982997
81 rdf:type schema:PropertyValue
82 N985ebc30ad624494a4176c6e796cbf2f schema:name pubmed_id
83 schema:value 20938831
84 rdf:type schema:PropertyValue
85 N9e124754c47141bcbe95d9327b7afd00 rdf:first N484651f4399c487ea35f8844d25c24b2
86 rdf:rest N843708996c174eec929e667e92ad3a5c
87 Nac3bda1b6e304661805a99dba5d3f762 schema:name Springer Nature - SN SciGraph project
88 rdf:type schema:Organization
89 Ncbb5c8ccac0943b8afb2b302117c09cb rdf:first sg:person.01024605131.74
90 rdf:rest rdf:nil
91 Nf389a38424bb485d9560cc8ddbfb2ca6 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
92 schema:name Papillomaviridae
93 rdf:type schema:DefinedTerm
94 Nfe82c00688dd4cef873cc8f12581fa57 schema:name doi
95 schema:value 10.1007/978-1-60761-947-5_4
96 rdf:type schema:PropertyValue
97 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
98 schema:name Biological Sciences
99 rdf:type schema:DefinedTerm
100 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
101 schema:name Genetics
102 rdf:type schema:DefinedTerm
103 sg:person.01024605131.74 schema:affiliation https://www.grid.ac/institutes/grid.412332.5
104 schema:familyName Nuovo
105 schema:givenName Gerard J
106 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01024605131.74
107 rdf:type schema:Person
108 sg:pub.10.1038/nprot.2008.215 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026866162
109 https://doi.org/10.1038/nprot.2008.215
110 rdf:type schema:CreativeWork
111 https://app.dimensions.ai/details/publication/pub.1074949609 schema:CreativeWork
112 https://app.dimensions.ai/details/publication/pub.1077221474 schema:CreativeWork
113 https://app.dimensions.ai/details/publication/pub.1077272717 schema:CreativeWork
114 https://app.dimensions.ai/details/publication/pub.1079422671 schema:CreativeWork
115 https://doi.org/10.1016/j.molcel.2010.02.018 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051309201
116 rdf:type schema:CreativeWork
117 https://doi.org/10.1016/j.ymeth.2007.10.008 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038031341
118 rdf:type schema:CreativeWork
119 https://doi.org/10.1093/ajcp/95.2.117 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031378440
120 rdf:type schema:CreativeWork
121 https://doi.org/10.1097/00000478-199009000-00004 schema:sameAs https://app.dimensions.ai/details/publication/pub.1036252091
122 rdf:type schema:CreativeWork
123 https://doi.org/10.1097/00000478-199203000-00007 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027740561
124 rdf:type schema:CreativeWork
125 https://doi.org/10.1097/00000478-200110000-00013 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029179647
126 rdf:type schema:CreativeWork
127 https://doi.org/10.1177/172460080902400401 schema:sameAs https://app.dimensions.ai/details/publication/pub.1100433633
128 rdf:type schema:CreativeWork
129 https://www.grid.ac/institutes/grid.412332.5 schema:alternateName The Ohio State University Wexner Medical Center
130 schema:name Comprehensive Cancer Center, Ohio State University Medical Center, Columbus, OH, USA.
131 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...